BLASTP 2.2.26 [Sep-21-2011]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Reference for compositional score matrix adjustment: Altschul, Stephen F.,
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.
Query= 018829
(350 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3SY8|A Chain A, Crystal Structure Of The Response Regulator Rocr
pdb|3SY8|B Chain B, Crystal Structure Of The Response Regulator Rocr
pdb|3SY8|C Chain C, Crystal Structure Of The Response Regulator Rocr
pdb|3SY8|D Chain D, Crystal Structure Of The Response Regulator Rocr
Length = 400
Score = 32.7 bits (73), Expect = 0.32, Method: Compositional matrix adjust.
Identities = 17/60 (28%), Positives = 30/60 (50%)
Query: 132 NDKFASERAQVTYNSSVGDGTYFLQEYTIPRGSNSFSLYDTRSLSDDASDNINMIKLWIM 191
N F +Q+ + + + L E+ +P S F + +T +S AS N+++LWIM
Sbjct: 229 NLAFNVHPSQLGSRALAENISALLTEFHLPPSSVMFEITETGLISAPASSLENLVRLWIM 288
>pdb|2EFC|B Chain B, Ara7-GdpATVPS9A
pdb|2EFC|D Chain D, Ara7-GdpATVPS9A
pdb|2EFD|B Chain B, Ara7ATVPS9A
pdb|2EFD|D Chain D, Ara7ATVPS9A
pdb|2EFE|B Chain B, Ara7-Gdpnh2ATVPS9A
pdb|2EFE|D Chain D, Ara7-Gdpnh2ATVPS9A
pdb|2EFH|B Chain B, Ara7-GdpATVPS9A(D185N)
pdb|2EFH|D Chain D, Ara7-GdpATVPS9A(D185N)
pdb|4G01|B Chain B, Ara7-gdp-ca2+/vps9a
Length = 181
Score = 32.0 bits (71), Expect = 0.54, Method: Compositional matrix adjust.
Identities = 21/64 (32%), Positives = 31/64 (48%), Gaps = 10/64 (15%)
Query: 109 LLLIGPKGSGKSSLVNRISKVFENDKFASERAQVTYNSSVGDGTYFLQEYTIPRGSNSFS 168
L+L+G G+GKSSLV R F D+F V + S +F Q + + F
Sbjct: 15 LVLLGDVGAGKSSLVLR----FVKDQF------VEFQESTIGAAFFSQTLAVNDATVKFE 64
Query: 169 LYDT 172
++DT
Sbjct: 65 IWDT 68
>pdb|4E0Z|A Chain A, Protelomerase Tela R205a Covalently Complexed With
Substrate Dna
Length = 462
Score = 31.6 bits (70), Expect = 0.75, Method: Compositional matrix adjust.
Identities = 29/124 (23%), Positives = 52/124 (41%), Gaps = 18/124 (14%)
Query: 214 RCKAHKIGCEPSVIRKVNFVIFVVDGLAVLKSMEGDSDVEKQYNQIVATTFNCPYL---- 269
R + + G +P+V+ ++ I ++G+ + M+ D E A T Y+
Sbjct: 138 RAEFNTAGRKPTVLLRIADFIAAMNGMDAKQDMQALWDAEIAIMNGRAQTTIISYITKYR 197
Query: 270 -----SFRDDKPVVVVTHGDLLSLTDRARIR-----TYLGELLGIPPAKQIFDIPE---- 315
+F DD P++ + GD + AR++ G L+ +Q+ I E
Sbjct: 198 NAIREAFGDDHPMLKIATGDAAMYDEAARVKMEKIANKHGALITFENYRQVLKICEDCLK 257
Query: 316 SSDP 319
SSDP
Sbjct: 258 SSDP 261
>pdb|1GAJ|A Chain A, Crystal Structure Of A Nucleotide-Free Atp-Binding
Cassette From An Abc Transporter
Length = 257
Score = 31.6 bits (70), Expect = 0.76, Method: Compositional matrix adjust.
Identities = 13/25 (52%), Positives = 19/25 (76%)
Query: 110 LLIGPKGSGKSSLVNRISKVFENDK 134
L+IGP GSGKS+L+N I+ + D+
Sbjct: 37 LIIGPNGSGKSTLINVITGFLKADE 61
>pdb|1G6H|A Chain A, Crystal Structure Of The Adp Conformation Of Mj1267, An
Atp- Binding Cassette Of An Abc Transporter
Length = 257
Score = 31.6 bits (70), Expect = 0.76, Method: Compositional matrix adjust.
Identities = 13/25 (52%), Positives = 19/25 (76%)
Query: 110 LLIGPKGSGKSSLVNRISKVFENDK 134
L+IGP GSGKS+L+N I+ + D+
Sbjct: 37 LIIGPNGSGKSTLINVITGFLKADE 61
>pdb|1G9X|A Chain A, Characterization Of The Twinning Structure Of Mj1267, An
Atp-Binding Cassette Of An Abc Transporter
pdb|1G9X|B Chain B, Characterization Of The Twinning Structure Of Mj1267, An
Atp-Binding Cassette Of An Abc Transporter
pdb|1G9X|C Chain C, Characterization Of The Twinning Structure Of Mj1267, An
Atp-Binding Cassette Of An Abc Transporter
Length = 257
Score = 31.6 bits (70), Expect = 0.76, Method: Compositional matrix adjust.
Identities = 13/25 (52%), Positives = 19/25 (76%)
Query: 110 LLIGPKGSGKSSLVNRISKVFENDK 134
L+IGP GSGKS+L+N I+ + D+
Sbjct: 37 LIIGPNGSGKSTLINVITGFLKADE 61
>pdb|4E10|A Chain A, Protelomerase Tela Y201a Covalently Complexed With
Substrate Dna
Length = 462
Score = 31.2 bits (69), Expect = 0.85, Method: Compositional matrix adjust.
Identities = 31/125 (24%), Positives = 53/125 (42%), Gaps = 20/125 (16%)
Query: 214 RCKAHKIGCEPSVIRKVNFVIFVVDGLAVLKSMEGDSDVEKQYNQIVATTFNCPYL---- 269
R + + G +P+V+ ++ I ++G+ + M+ D E A T Y+
Sbjct: 138 RAEFNTAGRKPTVLLRIADFIAAMNGMDAKQDMQALWDAEIAIMNGRAQTTIISYITKYR 197
Query: 270 -----SFRDDKPVVVVTHGDLLSLTDRAR------IRTYLGELLGIPPAKQIFDIPE--- 315
+F DD P++ + GD ++ D AR I G L+ +Q+ I E
Sbjct: 198 NAIREAFGDDHPMLKIATGD-AAMADEARRVKMEKIANKHGALITFENYRQVLKICEDCL 256
Query: 316 -SSDP 319
SSDP
Sbjct: 257 KSSDP 261
>pdb|3B5X|A Chain A, Crystal Structure Of Msba From Vibrio Cholerae
pdb|3B5X|B Chain B, Crystal Structure Of Msba From Vibrio Cholerae
Length = 582
Score = 30.4 bits (67), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 10/33 (30%), Positives = 22/33 (66%)
Query: 101 YDVPKTTSLLLIGPKGSGKSSLVNRISKVFEND 133
+ +P+ ++ L+G GSGKS++ N ++ ++ D
Sbjct: 364 FSIPQGKTVALVGRSGSGKSTIANLFTRFYDVD 396
>pdb|1X3S|A Chain A, Crystal Structure Of Human Rab18 In Complex With Gppnhp
Length = 195
Score = 30.0 bits (66), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 19/41 (46%), Positives = 23/41 (56%), Gaps = 4/41 (9%)
Query: 100 DYDVPKTTSLLLIGPKGSGKSSLVNRISKVFENDKFASERA 140
D DV T +L+IG G GKSSL+ R F +D F E A
Sbjct: 9 DEDVLTTLKILIIGESGVGKSSLLLR----FTDDTFDPELA 45
>pdb|1Q1B|A Chain A, Crystal Structure Of E. Coli Malk In The Nucleotide-Free
Form
pdb|1Q1B|B Chain B, Crystal Structure Of E. Coli Malk In The Nucleotide-Free
Form
pdb|1Q1B|C Chain C, Crystal Structure Of E. Coli Malk In The Nucleotide-Free
Form
pdb|1Q1B|D Chain D, Crystal Structure Of E. Coli Malk In The Nucleotide-Free
Form
Length = 381
Score = 30.0 bits (66), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 38/145 (26%), Positives = 63/145 (43%), Gaps = 8/145 (5%)
Query: 88 AWIENVGGMTLSDYDVPKTTSLLLIGPKGSGKSSLVNRIS---KVFENDKFASE-RAQVT 143
AW E V + + D+ + ++ +GP G GKS+L+ I+ + D F E R T
Sbjct: 12 AWGEVVVSKDI-NLDIHEGEFVVFVGPSGCGKSTLLRMIAGLETITSGDLFIGEKRMNDT 70
Query: 144 YNSSVGDGTYFLQEYTI-PRGSNSFSLYDTRSLSDDASDNINMIKLWIMEGVRHGELVIR 202
+ G G F Q Y + P S + ++ L+ + IN + E ++ L+ R
Sbjct: 71 PPAERGVGMVF-QSYALYPHLSVAENMSFGLKLAGAKKEVINQRVNQVAEVLQLAHLLDR 129
Query: 203 RSDSSSLRNRMRCK-AHKIGCEPSV 226
+ + S R R + EPSV
Sbjct: 130 KPKALSGGQRQRVAIGRTLVAEPSV 154
>pdb|1Q12|A Chain A, Crystal Structure Of The Atp-bound E. Coli Malk
pdb|1Q12|B Chain B, Crystal Structure Of The Atp-bound E. Coli Malk
pdb|1Q12|C Chain C, Crystal Structure Of The Atp-bound E. Coli Malk
pdb|1Q12|D Chain D, Crystal Structure Of The Atp-bound E. Coli Malk
pdb|1Q1E|A Chain A, The Atpase Component Of E. Coli Maltose Transporter (Malk)
In The Nucleotide-Free Form
pdb|1Q1E|B Chain B, The Atpase Component Of E. Coli Maltose Transporter (Malk)
In The Nucleotide-Free Form
pdb|2AWN|A Chain A, Crystal Structure Of The Adp-Mg-Bound E. Coli Malk
(Crystallized With Atp-Mg)
pdb|2AWN|B Chain B, Crystal Structure Of The Adp-Mg-Bound E. Coli Malk
(Crystallized With Atp-Mg)
pdb|2AWN|C Chain C, Crystal Structure Of The Adp-Mg-Bound E. Coli Malk
(Crystallized With Atp-Mg)
pdb|2AWN|D Chain D, Crystal Structure Of The Adp-Mg-Bound E. Coli Malk
(Crystallized With Atp-Mg)
pdb|2AWO|A Chain A, Crystal Structure Of The Adp-mg-bound E. Coli Malk
(crystallized With Adp-mg)
pdb|2AWO|B Chain B, Crystal Structure Of The Adp-mg-bound E. Coli Malk
(crystallized With Adp-mg)
pdb|2AWO|C Chain C, Crystal Structure Of The Adp-mg-bound E. Coli Malk
(crystallized With Adp-mg)
pdb|2AWO|D Chain D, Crystal Structure Of The Adp-mg-bound E. Coli Malk
(crystallized With Adp-mg)
pdb|3FH6|A Chain A, Crystal Structure Of The Resting State Maltose Transporter
From E. Coli
pdb|3FH6|B Chain B, Crystal Structure Of The Resting State Maltose Transporter
From E. Coli
pdb|3FH6|C Chain C, Crystal Structure Of The Resting State Maltose Transporter
From E. Coli
pdb|3FH6|D Chain D, Crystal Structure Of The Resting State Maltose Transporter
From E. Coli
pdb|3PUY|A Chain A, Crystal Structure Of An Outward-Facing Mbp-Maltose
Transporter Complex Bound To Amp-Pnp After Crystal
Soaking Of The Pretranslocation State
pdb|3PUY|B Chain B, Crystal Structure Of An Outward-Facing Mbp-Maltose
Transporter Complex Bound To Amp-Pnp After Crystal
Soaking Of The Pretranslocation State
pdb|3PUZ|A Chain A, Crystal Structure Of A Pre-Translocation State Mbp-Maltose
Transporter Complex Bound To Amp-Pnp
pdb|3PUZ|B Chain B, Crystal Structure Of A Pre-Translocation State Mbp-Maltose
Transporter Complex Bound To Amp-Pnp
pdb|3PV0|A Chain A, Crystal Structure Of A Pre-Translocation State Mbp-Maltose
Transporter Complex Without Nucleotide
pdb|3PV0|B Chain B, Crystal Structure Of A Pre-Translocation State Mbp-Maltose
Transporter Complex Without Nucleotide
pdb|3PUV|A Chain A, Crystal Structure Of An Outward-Facing Mbp-Maltose
Transporter Complex Bound To Adp-Vo4
pdb|3PUV|B Chain B, Crystal Structure Of An Outward-Facing Mbp-Maltose
Transporter Complex Bound To Adp-Vo4
pdb|3PUW|A Chain A, Crystal Structure Of An Outward-Facing Mbp-Maltose
Transporter Complex Bound To Adp-Alf4
pdb|3PUW|B Chain B, Crystal Structure Of An Outward-Facing Mbp-Maltose
Transporter Complex Bound To Adp-Alf4
pdb|3PUX|A Chain A, Crystal Structure Of An Outward-Facing Mbp-Maltose
Transporter Complex Bound To Adp-Bef3
pdb|3PUX|B Chain B, Crystal Structure Of An Outward-Facing Mbp-Maltose
Transporter Complex Bound To Adp-Bef3
pdb|3RLF|A Chain A, Crystal Structure Of The Maltose-Binding ProteinMALTOSE
TRANSPORTER Complex In An Outward-Facing Conformation
Bound To Mgamppnp
pdb|3RLF|B Chain B, Crystal Structure Of The Maltose-Binding ProteinMALTOSE
TRANSPORTER Complex In An Outward-Facing Conformation
Bound To Mgamppnp
Length = 381
Score = 30.0 bits (66), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 38/145 (26%), Positives = 63/145 (43%), Gaps = 8/145 (5%)
Query: 88 AWIENVGGMTLSDYDVPKTTSLLLIGPKGSGKSSLVNRIS---KVFENDKFASE-RAQVT 143
AW E V + + D+ + ++ +GP G GKS+L+ I+ + D F E R T
Sbjct: 12 AWGEVVVSKDI-NLDIHEGEFVVFVGPSGCGKSTLLRMIAGLETITSGDLFIGEKRMNDT 70
Query: 144 YNSSVGDGTYFLQEYTI-PRGSNSFSLYDTRSLSDDASDNINMIKLWIMEGVRHGELVIR 202
+ G G F Q Y + P S + ++ L+ + IN + E ++ L+ R
Sbjct: 71 PPAERGVGMVF-QSYALYPHLSVAENMSFGLKLAGAKKEVINQRVNQVAEVLQLAHLLDR 129
Query: 203 RSDSSSLRNRMRCK-AHKIGCEPSV 226
+ + S R R + EPSV
Sbjct: 130 KPKALSGGQRQRVAIGRTLVAEPSV 154
>pdb|2R6G|A Chain A, The Crystal Structure Of The E. Coli Maltose Transporter
pdb|2R6G|B Chain B, The Crystal Structure Of The E. Coli Maltose Transporter
Length = 381
Score = 30.0 bits (66), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 38/145 (26%), Positives = 63/145 (43%), Gaps = 8/145 (5%)
Query: 88 AWIENVGGMTLSDYDVPKTTSLLLIGPKGSGKSSLVNRIS---KVFENDKFASE-RAQVT 143
AW E V + + D+ + ++ +GP G GKS+L+ I+ + D F E R T
Sbjct: 12 AWGEVVVSKDI-NLDIHEGEFVVFVGPSGCGKSTLLRMIAGLETITSGDLFIGEKRMNDT 70
Query: 144 YNSSVGDGTYFLQEYTI-PRGSNSFSLYDTRSLSDDASDNINMIKLWIMEGVRHGELVIR 202
+ G G F Q Y + P S + ++ L+ + IN + E ++ L+ R
Sbjct: 71 PPAERGVGMVF-QSYALYPHLSVAENMSFGLKLAGAKKEVINQRVNQVAEVLQLAHLLDR 129
Query: 203 RSDSSSLRNRMRCK-AHKIGCEPSV 226
+ + S R R + EPSV
Sbjct: 130 KPKALSGGQRQRVAIGRTLVAEPSV 154
>pdb|3B5Y|A Chain A, Crystal Structure Of Msba From Salmonella Typhimurium With
Amppnp
pdb|3B5Y|B Chain B, Crystal Structure Of Msba From Salmonella Typhimurium With
Amppnp
pdb|3B5Y|C Chain C, Crystal Structure Of Msba From Salmonella Typhimurium With
Amppnp
pdb|3B5Y|D Chain D, Crystal Structure Of Msba From Salmonella Typhimurium With
Amppnp
pdb|3B5Z|A Chain A, Crystal Structure Of Msba From Salmonella Typhimurium With
Adp Vanadate
pdb|3B5Z|B Chain B, Crystal Structure Of Msba From Salmonella Typhimurium With
Adp Vanadate
pdb|3B5Z|C Chain C, Crystal Structure Of Msba From Salmonella Typhimurium With
Adp Vanadate
pdb|3B5Z|D Chain D, Crystal Structure Of Msba From Salmonella Typhimurium With
Adp Vanadate
pdb|3B60|A Chain A, Crystal Structure Of Msba From Salmonella Typhimurium With
Amppnp, Higher Resolution Form
pdb|3B60|B Chain B, Crystal Structure Of Msba From Salmonella Typhimurium With
Amppnp, Higher Resolution Form
pdb|3B60|C Chain C, Crystal Structure Of Msba From Salmonella Typhimurium With
Amppnp, Higher Resolution Form
pdb|3B60|D Chain D, Crystal Structure Of Msba From Salmonella Typhimurium With
Amppnp, Higher Resolution Form
Length = 582
Score = 30.0 bits (66), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 33/150 (22%), Positives = 62/150 (41%), Gaps = 37/150 (24%)
Query: 36 DDEGSRDSWDSLVDQRRRDAVFREVLQSYDQLRTRIGSLTDAKNKILSYTPGAWIENVGG 95
D E +D ++D+ D FR V +Y PG + +
Sbjct: 323 DSEQEKDEGKRVIDRATGDLEFRNVTFTY---------------------PGREVPALRN 361
Query: 96 MTLSDYDVPKTTSLLLIGPKGSGKSSLVNRISKVFENDKFASERAQVTYNSSVGDGTYFL 155
+ L +P ++ L+G GSGKS++ + I++ ++ D+ + DG + L
Sbjct: 362 INL---KIPAGKTVALVGRSGSGKSTIASLITRFYDIDE----------GHILMDG-HDL 407
Query: 156 QEYTIPRGSNSFSLY--DTRSLSDDASDNI 183
+EYT+ N +L + +D ++NI
Sbjct: 408 REYTLASLRNQVALVSQNVHLFNDTVANNI 437
>pdb|1G3I|A Chain A, Crystal Structure Of The Hsluv Protease-Chaperone Complex
pdb|1G3I|B Chain B, Crystal Structure Of The Hsluv Protease-Chaperone Complex
pdb|1G3I|C Chain C, Crystal Structure Of The Hsluv Protease-Chaperone Complex
pdb|1G3I|D Chain D, Crystal Structure Of The Hsluv Protease-Chaperone Complex
pdb|1G3I|E Chain E, Crystal Structure Of The Hsluv Protease-Chaperone Complex
pdb|1G3I|F Chain F, Crystal Structure Of The Hsluv Protease-Chaperone Complex
pdb|1G3I|S Chain S, Crystal Structure Of The Hsluv Protease-Chaperone Complex
pdb|1G3I|T Chain T, Crystal Structure Of The Hsluv Protease-Chaperone Complex
pdb|1G3I|U Chain U, Crystal Structure Of The Hsluv Protease-Chaperone Complex
pdb|1G3I|V Chain V, Crystal Structure Of The Hsluv Protease-Chaperone Complex
pdb|1G3I|W Chain W, Crystal Structure Of The Hsluv Protease-Chaperone Complex
pdb|1G3I|X Chain X, Crystal Structure Of The Hsluv Protease-Chaperone Complex
pdb|1G41|A Chain A, Crystal Structure Of Hslu Haemophilus Influenzae
pdb|1KYI|A Chain A, Hsluv (h. Influenzae)-nlvs Vinyl Sulfone Inhibitor Complex
pdb|1KYI|B Chain B, Hsluv (h. Influenzae)-nlvs Vinyl Sulfone Inhibitor Complex
pdb|1KYI|C Chain C, Hsluv (h. Influenzae)-nlvs Vinyl Sulfone Inhibitor Complex
pdb|1KYI|D Chain D, Hsluv (h. Influenzae)-nlvs Vinyl Sulfone Inhibitor Complex
pdb|1KYI|E Chain E, Hsluv (h. Influenzae)-nlvs Vinyl Sulfone Inhibitor Complex
pdb|1KYI|F Chain F, Hsluv (h. Influenzae)-nlvs Vinyl Sulfone Inhibitor Complex
pdb|1KYI|S Chain S, Hsluv (h. Influenzae)-nlvs Vinyl Sulfone Inhibitor Complex
pdb|1KYI|T Chain T, Hsluv (h. Influenzae)-nlvs Vinyl Sulfone Inhibitor Complex
pdb|1KYI|U Chain U, Hsluv (h. Influenzae)-nlvs Vinyl Sulfone Inhibitor Complex
pdb|1KYI|V Chain V, Hsluv (h. Influenzae)-nlvs Vinyl Sulfone Inhibitor Complex
pdb|1KYI|W Chain W, Hsluv (h. Influenzae)-nlvs Vinyl Sulfone Inhibitor Complex
pdb|1KYI|X Chain X, Hsluv (h. Influenzae)-nlvs Vinyl Sulfone Inhibitor Complex
Length = 444
Score = 30.0 bits (66), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 21/72 (29%), Positives = 32/72 (44%), Gaps = 5/72 (6%)
Query: 58 REVLQSYDQLRTRIGSLTDAKNKILSYTPGAWIENVGGMTLSDYDVPKTTSLLLIGPKGS 117
RE++ DQ I DAK + W L PK ++L+IGP G
Sbjct: 7 REIVSELDQ---HIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPK--NILMIGPTGV 61
Query: 118 GKSSLVNRISKV 129
GK+ + R++K+
Sbjct: 62 GKTEIARRLAKL 73
>pdb|3B5W|A Chain A, Crystal Structure Of Eschericia Coli Msba
pdb|3B5W|B Chain B, Crystal Structure Of Eschericia Coli Msba
pdb|3B5W|C Chain C, Crystal Structure Of Eschericia Coli Msba
pdb|3B5W|D Chain D, Crystal Structure Of Eschericia Coli Msba
pdb|3B5W|E Chain E, Crystal Structure Of Eschericia Coli Msba
pdb|3B5W|F Chain F, Crystal Structure Of Eschericia Coli Msba
pdb|3B5W|G Chain G, Crystal Structure Of Eschericia Coli Msba
pdb|3B5W|H Chain H, Crystal Structure Of Eschericia Coli Msba
Length = 582
Score = 29.6 bits (65), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 21/86 (24%), Positives = 43/86 (50%), Gaps = 13/86 (15%)
Query: 100 DYDVPKTTSLLLIGPKGSGKSSLVNRISKVFENDKFASERAQVTYNSSVGDGTYFLQEYT 159
+ +P ++ L+G GSGKS++ + I++ ++ D+ + DG + L+EYT
Sbjct: 363 NLKIPAGKTVALVGRSGSGKSTIASLITRFYDIDE----------GEILMDG-HDLREYT 411
Query: 160 IPRGSNSFSLY--DTRSLSDDASDNI 183
+ N +L + +D ++NI
Sbjct: 412 LASLRNQVALVSQNVHLFNDTVANNI 437
>pdb|1OFH|A Chain A, Asymmetric Complex Between Hslv And I-domain Deleted Hslu
(h. Influenzae)
pdb|1OFH|B Chain B, Asymmetric Complex Between Hslv And I-domain Deleted Hslu
(h. Influenzae)
pdb|1OFH|C Chain C, Asymmetric Complex Between Hslv And I-domain Deleted Hslu
(h. Influenzae)
pdb|1OFI|A Chain A, Asymmetric Complex Between Hslv And I-Domain Deleted Hslu
(H. Influenzae)
pdb|1OFI|B Chain B, Asymmetric Complex Between Hslv And I-Domain Deleted Hslu
(H. Influenzae)
pdb|1OFI|C Chain C, Asymmetric Complex Between Hslv And I-Domain Deleted Hslu
(H. Influenzae)
Length = 310
Score = 29.6 bits (65), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 21/72 (29%), Positives = 32/72 (44%), Gaps = 5/72 (6%)
Query: 58 REVLQSYDQLRTRIGSLTDAKNKILSYTPGAWIENVGGMTLSDYDVPKTTSLLLIGPKGS 117
RE++ DQ I DAK + W L PK ++L+IGP G
Sbjct: 7 REIVSELDQ---HIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPK--NILMIGPTGV 61
Query: 118 GKSSLVNRISKV 129
GK+ + R++K+
Sbjct: 62 GKTEIARRLAKL 73
>pdb|3QF4|B Chain B, Crystal Structure Of A Heterodimeric Abc Transporter In
Its Inward- Facing Conformation
Length = 598
Score = 29.3 bits (64), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 10/24 (41%), Positives = 19/24 (79%)
Query: 111 LIGPKGSGKSSLVNRISKVFENDK 134
L+GP GSGK+++VN + + ++ D+
Sbjct: 386 LVGPTGSGKTTIVNLLMRFYDVDR 409
>pdb|3DM5|A Chain A, Structures Of Srp54 And Srp19, The Two Proteins Assembling
The Ribonucleic Core Of The Signal Recognition Particle
From The Archaeon Pyrococcus Furiosus.
pdb|3DM5|B Chain B, Structures Of Srp54 And Srp19, The Two Proteins Assembling
The Ribonucleic Core Of The Signal Recognition Particle
From The Archaeon Pyrococcus Furiosus
Length = 443
Score = 29.3 bits (64), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 11/28 (39%), Positives = 21/28 (75%)
Query: 105 KTTSLLLIGPKGSGKSSLVNRISKVFEN 132
K T LL++G +GSGK++ V ++++ F+
Sbjct: 99 KPTILLMVGIQGSGKTTTVAKLARYFQK 126
>pdb|3UWX|A Chain A, Crystal Structure Of Uvra-Uvrb Complex
Length = 972
Score = 29.3 bits (64), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 16/44 (36%), Positives = 23/44 (52%), Gaps = 4/44 (9%)
Query: 87 GAWIENVGG----MTLSDYDVPKTTSLLLIGPKGSGKSSLVNRI 126
G W+E VG + +P T + + G GSGKS+LVN +
Sbjct: 627 GRWLEVVGAREHNLKNVSVKIPLGTFVAVTGVSGSGKSTLVNEV 670
>pdb|2R6F|A Chain A, Crystal Structure Of Bacillus Stearothermophilus Uvra
pdb|2R6F|B Chain B, Crystal Structure Of Bacillus Stearothermophilus Uvra
Length = 972
Score = 29.3 bits (64), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 16/44 (36%), Positives = 23/44 (52%), Gaps = 4/44 (9%)
Query: 87 GAWIENVGG----MTLSDYDVPKTTSLLLIGPKGSGKSSLVNRI 126
G W+E VG + +P T + + G GSGKS+LVN +
Sbjct: 627 GRWLEVVGAREHNLKNVSVKIPLGTFVAVTGVSGSGKSTLVNEV 670
>pdb|3UX8|A Chain A, Crystal Structure Of Uvra
Length = 670
Score = 28.9 bits (63), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 16/44 (36%), Positives = 23/44 (52%), Gaps = 4/44 (9%)
Query: 87 GAWIENVGG----MTLSDYDVPKTTSLLLIGPKGSGKSSLVNRI 126
G W+E VG + +P T + + G GSGKS+LVN +
Sbjct: 325 GRWLEVVGAREHNLKNVSVKIPLGTFVAVTGVSGSGKSTLVNEV 368
>pdb|4F4C|A Chain A, The Crystal Structure Of The Multi-Drug Transporter
Length = 1321
Score = 28.9 bits (63), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 17/55 (30%), Positives = 29/55 (52%), Gaps = 3/55 (5%)
Query: 78 KNKILSYTPGAWIENVGGMTLSDYDVPKTTSLLLIGPKGSGKSSLVNRISKVFEN 132
KN +Y IE + G++ S V +L L+GP G GKS++V + + ++
Sbjct: 1080 KNVRFAYPERPEIEILKGLSFS---VEPGQTLALVGPSGCGKSTVVALLERFYDT 1131
>pdb|1IM2|A Chain A, Hslu, Haemophilus Influenzae, Selenomethionine Variant
Length = 444
Score = 28.9 bits (63), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 21/72 (29%), Positives = 31/72 (43%), Gaps = 5/72 (6%)
Query: 58 REVLQSYDQLRTRIGSLTDAKNKILSYTPGAWIENVGGMTLSDYDVPKTTSLLLIGPKGS 117
RE++ DQ I DAK + W L PK ++L IGP G
Sbjct: 7 REIVSELDQ---HIIGQADAKRAVAIALRNRWRRXQLQEPLRHEVTPK--NILXIGPTGV 61
Query: 118 GKSSLVNRISKV 129
GK+ + R++K+
Sbjct: 62 GKTEIARRLAKL 73
>pdb|4F4J|A Chain A, Conversion Of The Enzyme Guanylate Kinase Into A Mitotic
Spindle Orienting Protein By A Single Mutation That
Inhibits Gmp- Induced Closing
pdb|4F4J|B Chain B, Conversion Of The Enzyme Guanylate Kinase Into A Mitotic
Spindle Orienting Protein By A Single Mutation That
Inhibits Gmp- Induced Closing
Length = 202
Score = 28.5 bits (62), Expect = 6.3, Method: Compositional matrix adjust.
Identities = 13/37 (35%), Positives = 22/37 (59%), Gaps = 10/37 (27%)
Query: 100 DYDVPKTTSL----------LLIGPKGSGKSSLVNRI 126
DYD+P T +L ++ GP G+GKS+L+ ++
Sbjct: 1 DYDIPTTENLYFQGSMSRPIVISGPSGTGKSTLLKKL 37
>pdb|4G37|A Chain A, Structure Of Cross-Linked Firefly Luciferase In Second
Catalytic Conformation
pdb|4G37|B Chain B, Structure Of Cross-Linked Firefly Luciferase In Second
Catalytic Conformation
Length = 555
Score = 28.5 bits (62), Expect = 6.6, Method: Compositional matrix adjust.
Identities = 13/31 (41%), Positives = 18/31 (58%)
Query: 101 YDVPKTTSLLLIGPKGSGKSSLVNRISKVFE 131
Y + +TTS +LI PKG K V ++ FE
Sbjct: 345 YGLTETTSAILITPKGDDKPGAVGKVVPFFE 375
>pdb|4FZM|A Chain A, Crystal Structure Of The Bacteriocin Syringacin M From
Pseudomonas Syringae Pv. Tomato Dc3000
Length = 284
Score = 28.1 bits (61), Expect = 6.9, Method: Compositional matrix adjust.
Identities = 18/69 (26%), Positives = 32/69 (46%), Gaps = 8/69 (11%)
Query: 37 DEGSRDSWD--------SLVDQRRRDAVFREVLQSYDQLRTRIGSLTDAKNKILSYTPGA 88
D+ RDS+ + +R+A R++ +Y+++ T IG I+ Y PG
Sbjct: 65 DQARRDSFGIQSKVALKTFAAADQREAEGRDLRTAYNEIATDIGRSQQINENIIKYPPGN 124
Query: 89 WIENVGGMT 97
+ + G MT
Sbjct: 125 HVLSGGLMT 133
>pdb|4FZN|A Chain A, Crystal Structure Of Syringacin M Mutant D232a From
Pseudomonas Syringae Pv. Tomato Dc3000
Length = 283
Score = 28.1 bits (61), Expect = 7.1, Method: Compositional matrix adjust.
Identities = 18/69 (26%), Positives = 32/69 (46%), Gaps = 8/69 (11%)
Query: 37 DEGSRDSWD--------SLVDQRRRDAVFREVLQSYDQLRTRIGSLTDAKNKILSYTPGA 88
D+ RDS+ + +R+A R++ +Y+++ T IG I+ Y PG
Sbjct: 64 DQARRDSFGIQSKVALKTFAAADQREAEGRDLRTAYNEIATDIGRSQQINENIIKYPPGN 123
Query: 89 WIENVGGMT 97
+ + G MT
Sbjct: 124 HVLSGGLMT 132
>pdb|4FZL|A Chain A, High Resolution Structure Of Truncated Bacteriocin
Syringacin M From Pseudomonas Syringae Pv. Tomato
Dc3000
pdb|4FZL|B Chain B, High Resolution Structure Of Truncated Bacteriocin
Syringacin M From Pseudomonas Syringae Pv. Tomato
Dc3000
Length = 247
Score = 28.1 bits (61), Expect = 8.5, Method: Compositional matrix adjust.
Identities = 18/69 (26%), Positives = 32/69 (46%), Gaps = 8/69 (11%)
Query: 37 DEGSRDSWD--------SLVDQRRRDAVFREVLQSYDQLRTRIGSLTDAKNKILSYTPGA 88
D+ RDS+ + +R+A R++ +Y+++ T IG I+ Y PG
Sbjct: 28 DQARRDSFGIQSKVALKTFAAADQREAEGRDLRTAYNEIATDIGRSQQINENIIKYPPGN 87
Query: 89 WIENVGGMT 97
+ + G MT
Sbjct: 88 HVLSGGLMT 96
>pdb|1UM8|A Chain A, Crystal Structure Of Helicobacter Pylori Clpx
Length = 376
Score = 27.7 bits (60), Expect = 8.9, Method: Compositional matrix adjust.
Identities = 14/44 (31%), Positives = 25/44 (56%)
Query: 107 TSLLLIGPKGSGKSSLVNRISKVFENDKFASERAQVTYNSSVGD 150
+++LLIGP GSGK+ + ++K + S+ +T VG+
Sbjct: 73 SNILLIGPTGSGKTLMAQTLAKHLDIPIAISDATSLTEAGYVGE 116
>pdb|3HWS|A Chain A, Crystal Structure Of Nucleotide-Bound Hexameric Clpx
pdb|3HWS|B Chain B, Crystal Structure Of Nucleotide-Bound Hexameric Clpx
pdb|3HWS|C Chain C, Crystal Structure Of Nucleotide-Bound Hexameric Clpx
pdb|3HWS|D Chain D, Crystal Structure Of Nucleotide-Bound Hexameric Clpx
pdb|3HWS|E Chain E, Crystal Structure Of Nucleotide-Bound Hexameric Clpx
pdb|3HWS|F Chain F, Crystal Structure Of Nucleotide-Bound Hexameric Clpx
Length = 363
Score = 27.7 bits (60), Expect = 9.2, Method: Compositional matrix adjust.
Identities = 13/44 (29%), Positives = 26/44 (59%)
Query: 107 TSLLLIGPKGSGKSSLVNRISKVFENDKFASERAQVTYNSSVGD 150
+++LLIGP GSGK+ L ++++ + ++ +T VG+
Sbjct: 52 SNILLIGPTGSGKTLLAETLARLLDVPFTMADATTLTEAGYVGE 95
>pdb|3HTE|A Chain A, Crystal Structure Of Nucleotide-Free Hexameric Clpx
pdb|3HTE|B Chain B, Crystal Structure Of Nucleotide-Free Hexameric Clpx
pdb|3HTE|C Chain C, Crystal Structure Of Nucleotide-Free Hexameric Clpx
pdb|3HTE|D Chain D, Crystal Structure Of Nucleotide-Free Hexameric Clpx
pdb|3HTE|E Chain E, Crystal Structure Of Nucleotide-Free Hexameric Clpx
pdb|3HTE|F Chain F, Crystal Structure Of Nucleotide-Free Hexameric Clpx
Length = 363
Score = 27.7 bits (60), Expect = 9.3, Method: Compositional matrix adjust.
Identities = 13/44 (29%), Positives = 26/44 (59%)
Query: 107 TSLLLIGPKGSGKSSLVNRISKVFENDKFASERAQVTYNSSVGD 150
+++LLIGP GSGK+ L ++++ + ++ +T VG+
Sbjct: 52 SNILLIGPTGSGKTLLAETLARLLDVPFTMADATTLTEAGYVGE 95
>pdb|3C7K|A Chain A, Molecular Architecture Of Galphao And The Structural Basis
For Rgs16-Mediated Deactivation
pdb|3C7K|C Chain C, Molecular Architecture Of Galphao And The Structural Basis
For Rgs16-Mediated Deactivation
Length = 333
Score = 27.7 bits (60), Expect = 9.6, Method: Compositional matrix adjust.
Identities = 16/50 (32%), Positives = 28/50 (56%), Gaps = 5/50 (10%)
Query: 103 VPKTTSLLLIGPKGSGKSSLVNRISKVFENDKFASERAQ----VTYNSSV 148
K LLL+G SGKS++V ++ K+ D F+ E + V Y++++
Sbjct: 9 AAKDVKLLLLGAGESGKSTIVKQM-KIIHEDGFSGEDVKQYKPVVYSNTI 57
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.317 0.135 0.392
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,428,423
Number of Sequences: 62578
Number of extensions: 424044
Number of successful extensions: 1575
Number of sequences better than 100.0: 49
Number of HSP's better than 100.0 without gapping: 26
Number of HSP's successfully gapped in prelim test: 23
Number of HSP's that attempted gapping in prelim test: 1544
Number of HSP's gapped (non-prelim): 53
length of query: 350
length of database: 14,973,337
effective HSP length: 100
effective length of query: 250
effective length of database: 8,715,537
effective search space: 2178884250
effective search space used: 2178884250
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 52 (24.6 bits)